RetrogeneDB ID: retro_ogar_2244

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873605.1:3369719..3370849(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000024819
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000005225
• Aliases: None
• Description: None

Sequence

>retro_ogar_2244
ATGGCAGCTGCTGTTCACTCTTGGGTTGTTTCGGGGCTGCCAGTGTCACGTTCTGCCATTACTGCAGTAGACACATCCAT
GTTTCATGGTCCACCCAGGCGCCATCTTCATTATACCCTCATACCTCATGGGAAAGGTGGGTGTTCCTCAGTCAGTGGCA
TTGTGGCAACTGTGTTTGGAGCAACAGGACTCCTGTGTGGATATGTTATCAACCACCTTGGACATATGGGATCACAAGTG
ATCATCCCCTATTGGTGTAATCCCTATGACGTCATGCACCTTTGTCCCATGGGTGACCTGGGCCAGCTTATCTTTCTGGA
ATGGAATGGAAGAGATAAAGACTCTATCCGACGAGCAGTGGAGCACAGCAATATGGTCATCAATCTTATTGGACGCGACT
GGGAAACCAAAAACTTTGATTTTGAAGATGTTTTTGTGAAGATTCCCCAAGCAATTGCTCAAATGTCCAAGGAAGCTGGA
GTTGAGAAATTCATTCACGTTTCCCATGTGAATGCTAATATTGAAAGCTCTTCTAGATATCTGAGAAATAAGGCTGTTGG
AGAGAAAGAAGTGAGAGATGTATTTCCAAAAGCCATTTTCATAAAGCCACCAGACATCTTTGGAAGAGAAGACAGATTCA
TCAATCTTTTTGCAAATATCCGTTCGTTTATTGGTATAACTCTTATGTCTTTGGTCGGAAGGCAAAGAAACAACCAGTAT
GTGTTGTAGATGTATTAAAAGGAATTGTTAATGCAGTTAAGGATCCAGAAGCCAAAGGGAAAAGCGTTGCTTTCTTTGGG
CCAAATCAGTTTGTCCTGTTTGACTTGGTGCAGTGTGTCTTTGCTGTGGCTCATAGGCTGTACCTCCTGTACCTTTTGCC
ACAGTTTGCCTGTCAATGGATAGCAAGATTCTTTGAAATAAGCCCATTTGAACCTTGGACGATGAGGGATAAAGTGGAAC
GGATTCACATCTCAGACATGGTATTACCTCACCTGCCCACCTTAGAAGACCTTGGTATTCAGGCAACACTGCTGGAACTC
AAGGCCATTGAGGTGCTCCGGCATCATCACACTTACTGCTGGTTGTCTTCTGAAACTGAGGATGTGAAGCCACCTAGGAC
CATAAACATG

Alignment

ORF - retro_ogar_2244 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.28 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAAAVHSRVVRGLPMSRSAITAVATSVFHGPPGRHLHYALIPHGKGGRSSVSGIVATVFGATGFLGRYVV
          MAAAVHS.VV.GLP.SRSAITAV.TS.FHGPP.RHLHY.LIPHGKGG.SSVSGIVATVFGATG.L..YV.
Retrocopy MAAAVHSWVVSGLPVSRSAITAVDTSMFHGPPRRHLHYTLIPHGKGGCSSVSGIVATVFGATGLLCGYVI

Parental  NHLGRMGSQVIIPYRCDTYDFMHLRPMGDLGQLIFLEWNGRDKDSIRRAVEHSNVVINLIGRDWETKNFD
          NHLG.MGSQVIIPY.C..YD.MHL.PMGDLGQLIFLEWNGRDKDSIRRAVEHSN.VINLIGRDWETKNFD
Retrocopy NHLGHMGSQVIIPYWCNPYDVMHLCPMGDLGQLIFLEWNGRDKDSIRRAVEHSNMVINLIGRDWETKNFD

Parental  FEDVFVKIPQAIAQVSKEAGVEKFIHVSHLNANIKSSSRYLRNKAVGEKEVRDAFPEAIIIKPSDIFGRE
          FEDVFVKIPQAIAQ.SKEAGVEKFIHVSH.NANI.SSSRYLRNKAVGEKEVRD.FP.AI.IKP.DIFGRE
Retrocopy FEDVFVKIPQAIAQMSKEAGVEKFIHVSHVNANIESSSRYLRNKAVGEKEVRDVFPKAIFIKPPDIFGRE

Parental  DRFLNHFANMRSFIGVPLISL-GLKIEKQPVYVVDVSKGIINAVKDPDAKGKSFAFFGPNRYFLFDLVQY
          DRF.N.FAN.RSFIG..L.SL.G.K..KQPV.VVDV.KGI.NAVKDP.AKGKS.AFFGPN...LFDLVQ.
Retrocopy DRFINLFANIRSFIGITLMSL<GRKAKKQPVCVVDVLKGIVNAVKDPEAKGKSVAFFGPNQFVLFDLVQC

Parental  IYAVAHRPFLPYPLPRFAYRWIARLFEVSPFEPWTTRDKVERIHISDMVLPHLPGLEDLGIEATPLELKA
          ..AVAHR..L.Y.LP.FA..WIAR.FE.SPFEPWT.RDKVERIHISDMVLPHLP.LEDLGI.AT.LELKA
Retrocopy VFAVAHRLYLLYLLPQFACQWIARFFEISPFEPWTMRDKVERIHISDMVLPHLPTLEDLGIQATLLELKA

Parental  IEVLRRHRTYRWLSSEIEDVKPPRTVTI
          IEVLR.H.TY.WLSSE.EDVKPPRT...
Retrocopy IEVLRHHHTYCWLSSETEDVKPPRTINM

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_2244 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000009588	1 retrocopy	retro_acar_16,
Danio rerio	ENSDARG00000070723	1 retrocopy	retro_drer_1,
Homo sapiens	ENSG00000139180	1 retrocopy	retro_hsap_2585,
Gorilla gorilla	ENSGGOG00000006076	1 retrocopy	retro_ggor_1618,
Macaca mulatta	ENSMMUG00000020813	1 retrocopy	retro_mmul_648,
Monodelphis domestica	ENSMODG00000018283	1 retrocopy	retro_mdom_209,
Nomascus leucogenys	ENSNLEG00000003252	1 retrocopy	retro_nleu_1520,
Otolemur garnettii	ENSOGAG00000005225	1 retrocopy	retro_ogar_2244 ,
Pongo abelii	ENSPPYG00000004171	1 retrocopy	retro_pabe_1905,
Pan troglodytes	ENSPTRG00000004557	1 retrocopy	retro_ptro_1511,
Ictidomys tridecemlineatus	ENSSTOG00000006504	1 retrocopy	retro_itri_543,